humanlayer · ryanrozich · Nov 14, 2025 · Nov 14, 2025 · Nov 14, 2025 · Nov 14, 2025
diff --git a/hlyr/README.md b/hlyr/README.md
@@ -199,24 +199,61 @@ humanlayer thoughts <subcommand>
 - `sync` - Manually sync thoughts and update searchable index
 - `status` - Check the status of your thoughts setup
 - `config` - View or edit thoughts configuration
+- `uninit` - Remove thoughts setup from current repository
+- `profile` - Manage thoughts profiles (for multiple thoughts repositories)
+
+**Profile Management:**
+
+The thoughts system supports multiple profiles, allowing you to maintain separate thoughts repositories for different organizational contexts (e.g., personal projects, different clients).
+
+```bash
+# Create a new profile
+humanlayer thoughts profile create <name> [--repo <path>] [--repos-dir <name>] [--global-dir <name>]
+
+# List all profiles
+humanlayer thoughts profile list [--json]
+
+# Show profile details
+humanlayer thoughts profile show <name> [--json]
+
+# Delete a profile
+humanlayer thoughts profile delete <name> [--force]
+```
 
 **Examples:**
 
 ```bash
-# Initialize thoughts for a new project
+# Initialize thoughts for a new project (default profile)
 humanlayer thoughts init
 
-# Sync thoughts after making changes
+# Create a profile for personal projects
+humanlayer thoughts profile create personal --repo ~/thoughts-personal
+
+# Initialize a repo with a specific profile
+cd ~/projects/personal-app
+humanlayer thoughts init --profile personal
+
+# Sync thoughts (automatically uses the correct profile's repository)
 humanlayer thoughts sync -m "Updated architecture notes"
 
-# Check status
+# Check status (shows which profile is active)
 humanlayer thoughts status
 
-# View configuration
-humanlayer thoughts config --json
+# View all profiles and configuration
+humanlayer thoughts config
+
+# List all configured profiles
+humanlayer thoughts profile list
 ```
 
-The thoughts system keeps your notes separate from code while making them easily accessible to AI assistants. See the [Thoughts documentation](./THOUGHTS.md) for detailed information.
+**Profile Features:**
+
+- **Multiple Repositories**: Each profile can have its own thoughts repository location
+- **Automatic Resolution**: Commands automatically use the correct profile based on repository mappings
+- **Backward Compatible**: Existing configurations without profiles continue to work unchanged
+- **Per-Repository Profiles**: Different repositories can use different profiles, even worktrees of the same repo
+
+The thoughts system keeps your notes separate from code while making them easily accessible to AI assistants.
 
 ### `claude`
 

diff --git a/hlyr/src/commands/thoughts.ts b/hlyr/src/commands/thoughts.ts
@@ -4,6 +4,10 @@ import { thoughtsUninitCommand } from './thoughts/uninit.js'
 import { thoughtsSyncCommand } from './thoughts/sync.js'
 import { thoughtsStatusCommand } from './thoughts/status.js'
 import { thoughtsConfigCommand } from './thoughts/config.js'
+import { profileCreateCommand } from './thoughts/profile/create.js'
+import { profileListCommand } from './thoughts/profile/list.js'
+import { profileShowCommand } from './thoughts/profile/show.js'
+import { profileDeleteCommand } from './thoughts/profile/delete.js'
 
 export function thoughtsCommand(program: Command): void {
   const thoughts = program.command('thoughts').description('Manage developer thoughts and notes')
@@ -14,6 +18,7 @@ export function thoughtsCommand(program: Command): void {
     .option('--force', 'Force reconfiguration even if already set up')
     .option('--config-file <path>', 'Path to config file')
     .option('--directory <name>', 'Specify the repository directory name (skips interactive prompt)')
+    .option('--profile <name>', 'Use a specific thoughts profile')
     .action(thoughtsInitCommand)
 
   thoughts
@@ -43,4 +48,37 @@ export function thoughtsCommand(program: Command): void {
     .option('--json', 'Output configuration as JSON')
     .option('--config-file <path>', 'Path to config file')
     .action(thoughtsConfigCommand)
+
+  // Profile management commands
+  const profile = thoughts.command('profile').description('Manage thoughts profiles')
+
+  profile
+    .command('create <name>')
+    .description('Create a new thoughts profile')
+    .option('--repo <path>', 'Thoughts repository path')
+    .option('--repos-dir <name>', 'Repos directory name')
+    .option('--global-dir <name>', 'Global directory name')
+    .option('--config-file <path>', 'Path to config file')
+    .action(profileCreateCommand)
+
+  profile
+    .command('list')
+    .description('List all thoughts profiles')
+    .option('--json', 'Output as JSON')
+    .option('--config-file <path>', 'Path to config file')
+    .action(profileListCommand)
+
+  profile
+    .command('show <name>')
+    .description('Show details of a specific profile')
+    .option('--json', 'Output as JSON')
+    .option('--config-file <path>', 'Path to config file')
+    .action(profileShowCommand)
+
+  profile
+    .command('delete <name>')
+    .description('Delete a thoughts profile')
+    .option('--force', 'Force deletion even if in use')
+    .option('--config-file <path>', 'Path to config file')
+    .action(profileDeleteCommand)
 }
diff --git a/hlyr/src/commands/thoughts/config.ts b/hlyr/src/commands/thoughts/config.ts
@@ -1,6 +1,10 @@
 import { spawn } from 'child_process'
 import chalk from 'chalk'
-import { loadThoughtsConfig } from '../../thoughtsConfig.js'
+import {
+  loadThoughtsConfig,
+  getRepoNameFromMapping,
+  getProfileNameFromMapping,
+} from '../../thoughtsConfig.js'
 import { getDefaultConfigPath } from '../../config.js'
 
 interface ConfigOptions {
@@ -54,9 +58,30 @@ export async function thoughtsConfigCommand(options: ConfigOptions): Promise<voi
     if (mappings.length === 0) {
       console.log(chalk.gray('  No repositories mapped yet'))
     } else {
-      mappings.forEach(([repo, thoughtsDir]) => {
+      mappings.forEach(([repo, mapping]) => {
+        const repoName = getRepoNameFromMapping(mapping)
+        const profileName = getProfileNameFromMapping(mapping)
+
         console.log(`  ${chalk.cyan(repo)}`)
-        console.log(`    → ${chalk.green(`${config.reposDir}/${thoughtsDir}`)}`)
+        console.log(`    → ${chalk.green(`${config.reposDir}/${repoName}`)}`)
+
+        if (profileName) {
+          console.log(`    Profile: ${chalk.yellow(profileName)}`)
+        } else {
+          console.log(`    Profile: ${chalk.gray('(default)')}`)
+        }
+      })
+    }
+
+    console.log('')
+
+    // Add profiles section
+    console.log(chalk.yellow('Profiles:'))
+    if (!config.profiles || Object.keys(config.profiles).length === 0) {
+      console.log(chalk.gray('  No profiles configured'))
+    } else {
+      Object.keys(config.profiles).forEach(name => {
+        console.log(`  ${chalk.cyan(name)}`)
       })
     }